LOCUS       NM_131272               2029 bp    mRNA    linear   VRT 03-APR-2024
DEFINITION  Danio rerio muscle segment homeobox 3 (msx3), mRNA.
ACCESSION   NM_131272
VERSION     NM_131272.2
KEYWORDS    RefSeq.
SOURCE      Danio rerio (zebrafish)
  ORGANISM  Danio rerio
            Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi;
            Actinopterygii; Neopterygii; Teleostei; Ostariophysi;
            Cypriniformes; Danionidae; Danioninae; Danio.
REFERENCE   1  (bases 1 to 2029)
  AUTHORS   Tamaki,T., Yoshida,T., Shibata,E., Nishihara,H., Ochi,H. and
            Kawakami,A.
  TITLE     Splashed E-box and AP-1 motifs cooperatively drive regeneration
            response and shape regeneration abilities
  JOURNAL   Biol Open 12 (2) (2023)
   PUBMED   36636913
REFERENCE   2  (bases 1 to 2029)
  AUTHORS   Sinclair,J.W., Hoying,D.R., Bresciani,E., Nogare,D.D., Needle,C.D.,
            Berger,A., Wu,W., Bishop,K., Elkahloun,A.G., Chitnis,A., Liu,P. and
            Burgess,S.M.
  TITLE     The Warburg effect is necessary to promote glycosylation in the
            blastema during zebrafish tail regeneration
  JOURNAL   NPJ Regen Med 6 (1), 55 (2021)
   PUBMED   34518542
  REMARK    Publication Status: Online-Only
REFERENCE   3  (bases 1 to 2029)
  AUTHORS   Tseng,W.C., Johnson Escauriza,A.J., Tsai-Morris,C.H., Feldman,B.,
            Dale,R.K., Wassif,C.A. and Porter,F.D.
  TITLE     The role of Niemann-Pick type C2 in zebrafish embryonic development
  JOURNAL   Development 148 (7) (2021)
   PUBMED   33722902
REFERENCE   4  (bases 1 to 2029)
  AUTHORS   Cheng,X., Zhang,J.J. and Shi,D.L.
  TITLE     Loss of Rbm24a causes defective hair cell development in the
            zebrafish inner ear and neuromasts
  JOURNAL   J Genet Genomics 47 (7), 403-406 (2020)
   PUBMED   33036919
REFERENCE   5  (bases 1 to 2029)
  AUTHORS   Kroll-Hermi,A., Ebstein,F., Stoetzel,C., Geoffroy,V., Schaefer,E.,
            Scheidecker,S., Bar,S., Takamiya,M., Kawakami,K., Zieba,B.A.,
            Studer,F., Pelletier,V., Eyermann,C., Speeg-Schatz,C., Laugel,V.,
            Lipsker,D., Sandron,F., McGinn,S., Boland,A., Deleuze,J.F.,
            Kuhn,L., Chicher,J., Hammann,P., Friant,S., Etard,C., Kruger,E.,
            Muller,J., Strahle,U. and Dollfus,H.
  TITLE     Proteasome subunit PSMC3 variants cause neurosensory syndrome
            combining deafness and cataract due to proteotoxic stress
  JOURNAL   EMBO Mol Med 12 (7), e11861 (2020)
   PUBMED   32500975
REFERENCE   6  (bases 1 to 2029)
  AUTHORS   Ekker,M., Akimenko,M.A., Allende,M.L., Smith,R., Drouin,G.,
            Langille,R.M., Weinberg,E.S. and Westerfield,M.
  TITLE     Relationships among msx gene structure and function in zebrafish
            and other vertebrates
  JOURNAL   Mol Biol Evol 14 (10), 1008-1022 (1997)
   PUBMED   9335141
REFERENCE   7  (bases 1 to 2029)
  AUTHORS   Riley,B.B. and Grunwald,D.J.
  TITLE     A mutation in zebrafish affecting a localized cellular function
            required for normal ear development
  JOURNAL   Dev Biol 179 (2), 427-435 (1996)
   PUBMED   8903357
REFERENCE   8  (bases 1 to 2029)
  AUTHORS   Hyatt,G.A., Schmitt,E.A., Marsh-Armstrong,N., McCaffery,P.,
            Drager,U.C. and Dowling,J.E.
  TITLE     Retinoic acid establishes ventral retinal characteristics
  JOURNAL   Development 122 (1), 195-204 (1996)
   PUBMED   8565830
REFERENCE   9  (bases 1 to 2029)
  AUTHORS   Macdonald,R., Barth,K.A., Xu,Q., Holder,N., Mikkola,I. and
            Wilson,S.W.
  TITLE     Midline signalling is required for Pax gene regulation and
            patterning of the eyes
  JOURNAL   Development 121 (10), 3267-3278 (1995)
   PUBMED   7588061
REFERENCE   10 (bases 1 to 2029)
  AUTHORS   Akimenko,M.A., Johnson,S.L., Westerfield,M. and Ekker,M.
  TITLE     Differential induction of four msx homeobox genes during fin
            development and regeneration in zebrafish
  JOURNAL   Development 121 (2), 347-357 (1995)
   PUBMED   7768177
COMMENT     VALIDATED REFSEQ: This record has undergone validation or
            preliminary review. The reference sequence was derived from
            AL831745.3, EH593082.1, DT069743.1 and EH607545.1.
            
            On Aug 18, 2015 this sequence version replaced NM_131272.1.
            
            Publication Note:  This RefSeq record includes a subset of the
            publications that are available for this gene. Please see the Gene
            record to access additional publications.
            
            ##Evidence-Data-START##
            Transcript exon combination :: GFIL01027003.1, BC071302.1
                                           [ECO:0000332]
            RNAseq introns              :: single sample supports all introns
                                           SAMEA2168446, SAMEA2168447
                                           [ECO:0000348]
            ##Evidence-Data-END##
PRIMARY     REFSEQ_SPAN         PRIMARY_IDENTIFIER PRIMARY_SPAN        COMP
            1-43                AL831745.3         96015-96057
            44-925              EH593082.1         49-930
            926-1334            DT069743.1         224-632
            1335-2026           EH607545.1         1-692               c
            2027-2029           AL831745.3         98444-98446
FEATURES             Location/Qualifiers
     source          1..2029
                     /organism="Danio rerio"
                     /mol_type="mRNA"
                     /strain="Tuebingen"
                     /db_xref="taxon:7955"
                     /chromosome="13"
                     /map="13"
     gene            1..2029
                     /gene="msx3"
                     /gene_synonym="homeobox; msh-C; mshC; msx-c; msxc;
                     zgc:86596"
                     /note="muscle segment homeobox 3"
                     /db_xref="GeneID:30526"
                     /db_xref="ZFIN:ZDB-GENE-980526-306"
     exon            1..517
                     /gene="msx3"
                     /gene_synonym="homeobox; msh-C; mshC; msx-c; msxc;
                     zgc:86596"
                     /inference="alignment:Splign:2.1.0"
     CDS             112..933
                     /gene="msx3"
                     /gene_synonym="homeobox; msh-C; mshC; msx-c; msxc;
                     zgc:86596"
                     /note="etID309953.13; muscle segment homeobox C"
                     /codon_start=1
                     /product="homeobox protein MSH-C"
                     /protein_id="NP_571347.2"
                     /db_xref="GeneID:30526"
                     /db_xref="ZFIN:ZDB-GENE-980526-306"
                     /translation="

MAPLSSMMNSEGPLSQEGKLQERKSADKEDAQSNDKAAVKGCKGKALSLPFSVESLISDRTSSRTLYTSSEAGIISPTSGADERLKLSPMALYADRKIPVESVSNLSDCKRGDMEELSDKGQSGWFQTTSYTSPPRHSSPPPCTLRKHKNNRKPRTPFTTSQLLALERKFRQKQYLSIAERAEFSNSLNLTETQVKIWFQNRRAKAKRLQEAELEKLKLATKPLLPAFAFPFPLGTHVGSPPLYGPSSSFPRPALPVPGLFGGPVTYGMYYLS"

     misc_feature    451..588
                     /gene="msx3"
                     /gene_synonym="homeobox; msh-C; mshC; msx-c; msxc;
                     zgc:86596"
                     /note="propagated from UniProtKB/Swiss-Prot (Q01703.1);
                     Region: Disordered. /evidence=ECO:0000256|SAM:MobiDB-lite"
     misc_feature    565..735
                     /gene="msx3"
                     /gene_synonym="homeobox; msh-C; mshC; msx-c; msxc;
                     zgc:86596"
                     /note="Region: Homeodomain; pfam00046"
                     /db_xref="CDD:459649"
     exon            518..2029
                     /gene="msx3"
                     /gene_synonym="homeobox; msh-C; mshC; msx-c; msxc;
                     zgc:86596"
                     /inference="alignment:Splign:2.1.0"
ORIGIN      

gcgagtgcgctctgcttggagagcgaggcaagcgtcgcaaaagcgcgacggcagaagggaagcgctgctggaccagagtacagttcaggacgactcacatattcttgttgtatggcccctttatcatctatgatgaattctgaagggccactctcccaagaaggaaaactacaggagcgcaaaagcgcggacaaagaggatgctcaatccaacgataaagcggctgtcaaaggatgtaaaggcaaagcgctgagtctcccgttcagtgtggaatctttaatatcagacagaacaagctcacggactttatacacgtcttctgaagctggtattatatctccgacatccggtgcggatgagcggctgaagctctcgcccatggctctttacgcagataggaagatcccagtggagagcgtctccaacctctccgactgcaagagaggggatatggaagaactaagtgacaagggacagtccggctggtttcagacaacctcgtacacttctccgccaaggcattcaagtccacccccctgtaccctcagaaagcacaagaacaaccgaaaaccgcggaccccgtttaccacctcgcagttgctcgctttggagagaaaatttcgtcaaaaacagtatctttctattgcagagagagcggaattttccaattcactcaacctcacagagactcaagttaaaatctggtttcaaaacagacgggcgaaggcaaaaagactccaggaggccgaactagagaaactgaaacttgcaaccaagccgttattacctgcgttcgcctttccgttcccactcggaacacatgttggttctccaccactctacggaccgtccagctcctttcccagacctgccttaccagtcccgggacttttcggtgggccagtgacctacggaatgtattatttgtcttaacagactgaagcacgtccttcaattcaccgtctgtaactgctgcaattctgccagtcaaaagacgtgtgaaattgcaaatatgtttcctttatagaacttaagcaaatgcaaaaatttaaaataaattatttttgtaatccacacggtttattccaaaagtaatagtacccaaattggttttaaaagtgcaatgaatattccccttaatacagaagactttatgctgtattatacaagtatagcctacagacacaccgctatgtgaataattgtcttagtctcagagaaaatatttccagtagattatttcaagggcacagccgatctagaaagtttctagagcagcatcatttgttgatgtgtgatgcgaaaataaactcctggtttgtgccagttccaaaaagctcttaaagaagaccttataattactatttttttttaaattaaagtgcttgtttcgactggcagcagaataggcctataccgtaaaaataaaagttttactgtgtcattgctactttccataggtctgccctaattggggcctaaatggattgtaagagccttttttaaattaatccatgtattttcactcaaaccaaatattttgtagaatattacaaagattgtgctcagatatcaaaattagcaaattctctactgccaatctggttacttgtttttatttctgcccgctattagtttcagatattcgatttgttatttggttggtctttattgaatatgatcaacgagaaacagcatcttcaattactctatactttttcttcccaaaccttttgggacacagagtattttggcctgtgttttttgattttcgcctgtttagccataatcccttcagtagactacatgtatgctagtttgctaggttgtaagaataatgtctagatttttttattattgtaaatacacgtatatattacagattttgcattccctttgaacaaaaatacaaacagaattgctgatatttatacactgtttacatttatcttctgtaaattattgtatattttatatgtatatacaaattagaaataatcttttgcattaaaataaatcttcacagaaa

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